[Home] | [Total List]

[190616_at]

Description R12C12.1 /REP_DB=WormBase Gene ID /WP=CE02846 /TR=Q21962 /GB=AAC46780.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Glycine dehydrogenase
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 41      4grp_highest_8_8 > 09      4grp_high_8_8 > 54      6grp_highest_nonorm > 33      6grp_total > 52      4grp_total > 58      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1057
1 2 3 4 range
A 1020
(-1.1)
P 		1539.3
(3)
P 		1390.2
(1.8)
P 		781.2
(-3)
P 		758
B 1080.1
(-1)
P 		1518.3
(1.5)
P 		1785.4
(3)
P 		728.5
(-3)
P 		1057
C 1006.3
(-2.1)
P 		1468.3
(1.3)
P 		1698.1
(3)
P 		876.2
(-3)
P 		822
avr 1035.5
(-1.3) 		1508.6
(2.2) 		1624.6
(3) 		795.3
(-3) 		829

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1837
1 2 3 4 5 6 range
A 932.6
(-2.2)
P 		1578.7
(-0.1)
P 		2520.4
(3)
P 		1399.3
(-0.7)
P 		693
(-3)
P 		683.4
(-3)
P 		1837
B 1168.9
(-1.6)
P 		1800.4
(0.6)
P 		2509.1
(3)
P 		1393.6
(-0.8)
P 		777
(-2.9)
P 		762.3
(-3)
P 		1747
C 1224
(-1.6)
P 		1579
(0.1)
P 		2217
(3)
P 		1467
(-0.5)
P 		1033
(-2.5)
P 		914.5
(-3)
P 		1303
avr 1108.5
(-1.8) 		1652.7
(0.2) 		2415.5
(3) 		1420
(-0.7) 		834.3
(-2.8) 		786.7
(-3) 		1629
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 478
1 2 3 4 range
A 371.4
(3)
P 		334.1
(2.1)
P 		363.4
(2.8)
P 		114.3
(-3)
P 		257
B 344.4
(1.4)
P 		375
(2.1)
P 		413.7
(3)
P 		155.2
(-3)
P 		259
C 333.1
(-0.5)
P 		422.2
(0.7)
P 		591.9
(3)
P 		147.7
(-3)
P 		444
avr 349.6
(1) 		377.1
(1.5) 		456.3
(3) 		139.1
(-3) 		317

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 443
1 2 3 4 5 6 range
A 171.9
(-2.9)
P 		561.5
(3)
P 		548.9
(2.8)
P 		354.9
(-0.1)
P 		209.1
(-2.4)
P 		166.4
(-3)
P 		395
B 406.7
(-0.7)
P 		599.3
(2.8)
P 		609.3
(3)
P 		369.1
(-1.4)
P 		315.7
(-2.4)
P 		284.3
(-3)
P 		325
C 453.7
(0.5)
P 		481.8
(1.2)
P 		564.3
(3)
P 		295
(-3)
P 		334.3
(-2.1)
P 		306.1
(-2.8)
P 		269
avr 344.1
(-1.3) 		547.5
(2.5) 		574.2
(3) 		339.7
(-1.4) 		286.4
(-2.4) 		252.3
(-3) 		322
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190616_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5653
Sequence Type Exemplar sequence
Representative Public ID R12C12.1 NCBI
Target Description R12C12.1 /REP_DB=WormBase Gene ID /WP=CE02846 /TR=Q21962 /GB=AAC46780.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Glycine dehydrogenase
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_062808(11), NM_182132(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062808 NCBI Caenorhabditis elegans R12C12.1a (R12C12.1) mRNA, complete cds. 11/11 None
NM_182132 NCBI Caenorhabditis elegans R12C12.1b (R12C12.1) mRNA, complete cds. 11/11 None
SNAP00000025498 ENSEMBL cdna:SNAP chromosome:CEL140:II:6050395:6054182:1 11/11 None
GENEFINDER00000025597 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6050395:6054182:1 11/11 None
R12C12.1a.2 ENSEMBL cdna:known chromosome:CEL140:II:6050330:6054261:1 gene:R12C12.1 11/11 None
R12C12.1a.1 ENSEMBL cdna:known chromosome:CEL140:II:6050375:6054265:1 gene:R12C12.1 11/11 None
R12C12.1b ENSEMBL cdna:known chromosome:CEL140:II:6052157:6054182:1 gene:R12C12.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6050391-6054179(+) 100.0 100.0
Public Domain and Genome References
Ensembl R12C12.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_495209 R12C12.1a [Caenorhabditis elegans] gb|AAC46780.1| Hypothetical protein R12C12.1a [Caenorhabditis elegans] 0.0
blast CAE59244 Hypothetical protein CBG02570 [Caenorhabditis briggsae] 0.0
blast XP_538655 PREDICTED: similar to Glycine dehydrogenase [decarboxylating], mitochondrial precursor (Glycine decarboxylase) (Glycine cleavage system P-protein) isoform 1 [Canis familiaris] 0.0
blast NP_871932 R12C12.1b [Caenorhabditis elegans] gb|AAO38610.1| Hypothetical protein R12C12.1b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003437 EMBL-EBI Glycine cleavage system P-protein 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:190616_AT
gcttctgctccgtatggttcagcaagtattcttgcaattacatgggcttacattcgtatg
atggggccagttggtcttcgtgaagcatctcaagtagcaattctcaatgctaattatatg
gctaaacgactcgaaaatgactaccgtatcgtttacaaagatgaacagggtcttgtagct
cacgagtttattatggattgtaagccattcaagaagcacggaattgaggttgttgatatt
gcgaaaagattgatggattatggtttccattcaccaacgatgtcgtggcctgtgcacgat
tgtctcatgattgagcccaccgaatcagaagacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTTCTGCTCCGTATGGTTCAGCAA 141 307 2332 Antisense
TTCTTGCAATTACATGGGCTTACAT 329 689 2360 Antisense
GGGCTTACATTCGTATGATGGGGCC 477 493 2375 Antisense
ATGATGGGGCCAGTTGGTCTTCGTG 39 47 2389 Antisense
GGTCTTCGTGAAGCATCTCAAGTAG 581 503 2404 Antisense
AGCATCTCAAGTAGCAATTCTCAAT 172 79 2415 Antisense
GAAAATGACTACCGTATCGTTTACA 553 317 2464 Antisense
AACAGGGTCTTGTAGCTCACGAGTT 234 137 2495 Antisense
TTGTAAGCCATTCAAGAAGCACGGA 355 697 2529 Antisense
GAAGCACGGAATTGAGGTTGTTGAT 429 341 2544 Antisense
TTGAGCCCACCGAATCAGAAGACAA 294 705 2642 Antisense
Sequence Source Affymetrix Proprietary Database